Locus 3554

Sequence ID 3R_DroMel_CAF1
Location 9,623,920 – 9,624,027
Length 107
Max. P 0.576989
window5709

overview

Window 9

Location 9,623,920 – 9,624,027
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 95.23
Mean single sequence MFE -37.16
Consensus MFE -33.48
Energy contribution -33.60
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.16
Structure conservation index 0.90
SVM decision value 0.09
SVM RNA-class probability 0.576989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9623920 107 + 27905053
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCUCCAUGAGGAUGGGGGCCUCAAGUGUCGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))....(((((.......))))).............. ( -35.00)
>DroSec_CAF1 16910 107 + 1
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCUCCAUGACAACGAGGGCCCCAAGUGUUGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))......((((((..(....)...))))))...... ( -35.00)
>DroSim_CAF1 18000 107 + 1
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCUCCAUGACGAUGGGGGCCCCAAGUGUCGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))..(((((((...((....))...)))))))..... ( -41.00)
>DroEre_CAF1 17378 107 + 1
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCGCCAUGACGGUGUGGGCCCCAAGUGUCGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))..(((((((.(.(((...)))).)))))))..... ( -38.60)
>DroYak_CAF1 17462 107 + 1
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCGCCAUGUAGGUGUGGCCCCCAAGUGUCGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))(((((......)))))................... ( -36.20)
>consensus
GCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUCUCCCAACUGAGCUAUUUCGGCUCCAUGACGAUGGGGGCCCCAAGUGUCGUGUAGUC
((((((((((((.......))))).....((((((.....)))))).((((........))))..)))))))..(((((((....((...))...)))))))..... (-33.48 = -33.60 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:03 2006